Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Rai1

Cell type

Cell type Class
Neural
Cell type
Cortex
NA
NA

Attributes by original data submitter

Sample

source_name
Cortex-Rai-ChIP
strain
B6/129
generation
F1
tissue
Cortex
chip antibody
anti-FLAG M2 (Sigma, catalog# F1804)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and Rai1-DNA complexes were isolated with anti-FLAG antibody. Libraries were prepared according to Illumina's instructions accompanying the DNA Sample Kit (Nextera DNA Library Prep Kit).

Sequencing Platform

instrument_model
Illumina HiSeq 2500

mm10

Number of total reads
36695403
Reads aligned (%)
96.5
Duplicates removed (%)
11.0
Number of peaks
13166 (qval < 1E-05)

mm9

Number of total reads
36695403
Reads aligned (%)
96.4
Duplicates removed (%)
11.8
Number of peaks
13100 (qval < 1E-05)

Base call quality data from DBCLS SRA